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Efficient and scalable gene delivery method with easily generated cationic carbon dots Biol. Proced. Online (IF 6.4) Pub Date : 2024-03-08 Manuel Algarra, Elena Gonzalez-Muñoz
Gene delivery is a complex process with several challenges when attempting to incorporate genetic material efficiently and safely into target cells. Some of the key challenges include not only efficient cellular uptake and endosomal escape to ensure that the genetic material can exert its effect but also minimizing the toxicity of the delivery system, which is vital for safe gene delivery. Of importance
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Correction: Methyl β-Cyclodextrin-sperm-mediated gene editing (MBCD-SMGE): a simple and efficient method for targeted mutant mouse production Biol. Proced. Online (IF 6.4) Pub Date : 2024-02-16 Parisa Moradbeigi, Sara Hosseini, Mohammad Salehi, Asghar Mogheiseh
Correction: Biol Proced Online 26, 3 (2024) https://doi.org/10.1186/s12575-024-00230-9 Following publication of the original article [1], the author reported two errors: 1. The error in Fig. 3 displaying blastocysts obtained from the 2mM CAG-GFP group instead of the intended 2mM gRNA-Cas9 group, as clarified in the figure legend within the article. The correct figure is shown in this article. Also
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ZIF-8 Nanoparticle: A Valuable Tool for Improving Gene Delivery in Sperm-Mediated Gene Transfer Biol. Proced. Online (IF 6.4) Pub Date : 2024-01-26 Marzieh Sameni, Parisa Moradbeigi, Sara Hosseini, Sayyed Mohammad Hossein Ghaderian, Vahid Jajarmi, Amir Hossein Miladipour, Hojat Basati, Maryam Abbasi, Mohammad Salehi
Metal–organic frameworks (MOFs) are porous materials with unique characteristics that make them well-suited for drug delivery and gene therapy applications. Among the MOFs, zeolitic imidazolate framework-8 (ZIF-8) has emerged as a promising candidate for delivering exogenous DNA into cells. However, the potential of ZIF-8 as a vector for sperm-mediated gene transfer (SMGT) has not yet been thoroughly
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Methyl β-Cyclodextrin-sperm-mediated gene editing (MBCD-SMGE): a simple and efficient method for targeted mutant mouse production Biol. Proced. Online (IF 6.4) Pub Date : 2024-01-26 Parisa Moradbeigi, Sara Hosseini, Mohammad Salehi, Asghar Mogheiseh
Generating targeted mutant mice is a crucial technology in biomedical research. This study focuses on optimizing the CRISPR/Cas9 system uptake into sperm cells using the methyl β-cyclodextrin-sperm-mediated gene transfer (MBCD-SMGT) technique to generate targeted mutant blastocysts and mice efficiently. Additionally, the present study elucidates the roles of cholesterol and reactive oxygen species
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Standardized Pre-clinical Surgical Animal Model Protocol to Investigate the Cellular and Molecular Mechanisms of Ischemic Flap Healing Biol. Proced. Online (IF 6.4) Pub Date : 2024-01-17 Edita Aksamitiene, Ryan N. Heffelfinger, Jan B. Hoek, Edmund deAzevedo Pribitkin
Some of the most complex surgical interventions to treat trauma and cancer include the use of locoregional pedicled and free autologous tissue transfer flaps. While the techniques used for these reconstructive surgery procedures have improved over time, flap complications and even failure remain a significant clinical challenge. Animal models are useful in studying the pathophysiology of ischemic flaps
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MBD3 promotes epithelial-mesenchymal transition in gastric cancer cells by upregulating ACTG1 via the PI3K/AKT pathway Biol. Proced. Online (IF 6.4) Pub Date : 2024-01-05 Huizhi Wang, Jingyu Min, Yuntao Ding, Zhengyue Yu, Yujing Zhou, Shunyu Wang, Aihua Gong, Min Xu
Gastric cancer (GC) is a common malignancy and a leading cause of cancer-related death with high morbidity and mortality. Methyl-CpG binding domain protein 3 (MBD3), a key epigenetic regulator, is abnormally expressed in several cancers, participating in progression and metastasis. However, the role of MBD3 in GC remains unknown. MBD3 expression was assessed via public databases and validated by western
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Development of a Large-Scale Pathogen Screening Test for the Biosafety Evaluation of Canine Mesenchymal Stem Cells Biol. Proced. Online (IF 6.4) Pub Date : 2023-12-14 Emese Pekker, Katalin Priskin, Éva Szabó-Kriston, Bernadett Csányi, Orsolya Buzás-Bereczki, Lili Adorján, Valéria Szukacsov, Lajos Pintér, Miklós Rusvai, Paul Cooper, Endre Kiss-Tóth, Lajos Haracska
The action of mesenchymal stem cells (MSCs) is the subject of intense research in the field of regenerative medicine, including their potential use in companion animals, such as dogs. To ensure the safety of canine MSC batches for their application in regenerative medicine, a quality control test must be conducted in accordance with Good Manufacturing Practices (GMP). Based on guidance provided by
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Musashi-2 Deficiency Triggers Colorectal Cancer Ferroptosis by Downregulating the MAPK Signaling Cascade to Inhibit HSPB1 Phosphorylation Biol. Proced. Online (IF 6.4) Pub Date : 2023-12-01 Xiaole Meng, Xiao Peng, Wanxin Ouyang, Hui Li, Risi Na, Wenting Zhou, Xuting You, Yuhuan Li, Xin Pu, Ke Zhang, Junjie Xia, Jie Wang, Guohong Zhuang, Huamei Tang, Zhihai Peng
Musashi-2 (MSI2) is a critical RNA-binding protein (RBP) whose ectopic expression drives the pathogenesis of various cancers. Accumulating evidence suggests that inducing ferroptosis of tumor cells can inhibit their malignant biological behavior as a promising therapeutic approach. However, it is unclear whether MSI2 regulates cell death in colorectal cancer (CRC), especially the underlying mechanisms
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Screening of Natural Compounds for CYP11A1 Stimulation Against Cell Renal Cell Carcinoma Biol. Proced. Online (IF 6.4) Pub Date : 2023-11-30 Hien Thi My Ong, Eda Ates, Oh-Seung Kwon, Min-Jung Kang
Renal cancer therapies are challenging owing to the extensive spreading of this cancer to other organs and its ability to pose resistance to current medications. Therefore, drugs targeting novel targets are urgently required to overcome these challenges. The cholesterol side-chain cleavage enzyme (CYP11A1) is closely associated with steroidogenesis, and its downregulation is linked to adrenal dysfunction
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D-allose Inhibits TLR4/PI3K/AKT Signaling to Attenuate Neuroinflammation and Neuronal Apoptosis by Inhibiting Gal-3 Following Ischemic Stroke Biol. Proced. Online (IF 6.4) Pub Date : 2023-11-28 Yaowen Luo, Junkai Cheng, Yihao Fu, Min Zhang, Maorong Gou, Juan Li, Xiaobing Li, Jing Bai, Yuefei Zhou, Lei Zhang, Dakuan Gao
Ischemic stroke (IS) occurs when a blood vessel supplying the brain becomes obstructed, resulting in cerebral ischemia. This type of stroke accounts for approximately 87% of all strokes. Globally, IS leads to high mortality and poor prognosis and is associated with neuroinflammation and neuronal apoptosis. D-allose is a bio-substrate of glucose that is widely expressed in many plants. Our previous
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Identification of exosome protein panels as predictive biomarkers for non-small cell lung cancer Biol. Proced. Online (IF 6.4) Pub Date : 2023-11-13 Bin Luo, Zujun Que, Xinyi Lu, Dan Qi, Zhi Qiao, Yun Yang, Fangfang Qian, Yi Jiang, Yan Li, Ronghu Ke, Xiaoyun Shen, Hua Xiao, Hegen Li, Erxi Wu, Jianhui Tian
Non-small cell lung cancer (NSCLC) remains a leading cause of cancer-related deaths worldwide, primarily due to its propensity for metastasis. Patients diagnosed with localized primary cancer have higher survival rates than those with metastasis. Thus, it is imperative to discover biomarkers for the early detection of NSCLC and the timely prediction of tumor metastasis to improve patient outcomes.
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Extracellular Vesicles for Drug Delivery in Cancer Treatment Biol. Proced. Online (IF 6.4) Pub Date : 2023-11-09 Li Wang, Xin Yu, Juan Zhou, Chunxia Su
Extracellular vesicles (EVs) are nanoscale vesicles derived from cells that mediate intercellular communication by transporting bioactive molecules. They play significant roles in various physiological and pathological conditions. EVs hold great potential as novel biomarkers of diseases, therapeutic agents, and drug delivery vehicles. Furthermore, EVs as novel drug delivery vehicles have demonstrated
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Visualisation of Bluetongue Virus in the Salivary Apparatus of Culicoides Biting Midges Highlights the Accessory Glands as a Primary Arboviral Infection Site Biol. Proced. Online (IF 6.4) Pub Date : 2023-11-06 Marc Guimerà Busquets, Faye V. Brown, Simon T. Carpenter, Karin E. Darpel, Christopher J. Sanders
Arthropods transmit a wide range of pathogens of importance for the global health of humans, animals, and plants. One group of these arthropod vectors, Culicoides biting midges (Diptera: Ceratopogonidae), is the biological vector of several human and animal pathogens, including economically important livestock viruses like bluetongue virus (BTV). Like other arthropod-borne viruses (arboviruses), Culicoides-borne
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Comparison of two protocols for the generation of iPSC-derived human astrocytes Biol. Proced. Online (IF 6.4) Pub Date : 2023-09-20 Patrycja Mulica, Carmen Venegas, Zied Landoulsi, Katja Badanjak, Sylvie Delcambre, Maria Tziortziou, Soraya Hezzaz, Jenny Ghelfi, Semra Smajic, Jens Schwamborn, Rejko Krüger, Paul Antony, Patrick May, Enrico Glaab, Anne Grünewald, Sandro L. Pereira
Astrocytes have recently gained attention as key contributors to the pathogenesis of neurodegenerative disorders including Parkinson’s disease. To investigate human astrocytes in vitro, numerous differentiation protocols have been developed. However, the properties of the resulting glia are inconsistent, which complicates the selection of an appropriate method for a given research question. Thus, we
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A Novel Dual-Reporter System Reveals Distinct Characteristics of Exosome-Mediated Protein Secretion in Human Cells Biol. Proced. Online (IF 6.4) Pub Date : 2023-09-20 Christopher Olson, Pengyang Zhang, Joy Ku, Renceh Flojo, Darin Boyes, Biao Lu
Exosomes, a special subtype of extracellular vesicles derived from human cells, serve as vital mediators of intercellular communication by transporting diverse bioactive cargos, including proteins and enzymes. However, the underlying mechanisms governing exosome secretion and regulation remain poorly understood. In this study, we employed a dual-reporter system consisting of bioluminescent Gaussia
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Immune Activation Effects at Different Irradiated Sites and Optimal Timing of Radioimmunotherapy in Patients with Extensive-Stage Small Cell Lung Cancer: a Real-World Analysis Biol. Proced. Online (IF 6.4) Pub Date : 2023-09-14 Min Wu, Shihao Wu, Yuetong Chen, Liangchao Sun, Jundong Zhou
In view of the limited data on radiotherapy (RT) combined with immunotherapy in patients with extensive-stage small cell lung cancer (ES-SCLC), this study aimed to identify the immune activation effect on different sites and the survival outcomes of radioimmunotherapy at different treatment stages. Forty-five patients diagnosed with ES-SCLC were included in this retrospective analysis. We collected
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Correction: Circ‑ABCB10 knockdown inhibits the malignant progression of cervical cancer through microRNA‑128‑3p/ZEB1 axis Biol. Proced. Online (IF 6.4) Pub Date : 2023-08-04 Wei Feng, Dongya Zhang, Ruitao Zhang
Correction: Biol Proced Online 23, 17 (2021) https://doi.org/10.1186/s12575-021-00154-8 In the original publication of this article [1], the authors identified an error the author Ruixia Guo should be removed due to lack of contribution. The original article has been corrected. Feng W, Zhang D, Zhang R. Circ-ABCB10 knockdown inhibits the malignant progression of cervical cancer through microRNA-128-3p/ZEB1
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A high-throughput screening system for SARS-CoV-2 entry inhibition, syncytia formation and cell toxicity Biol. Proced. Online (IF 6.4) Pub Date : 2023-07-26 Shine Varghese Jancy, Santhik Subhasingh Lupitha, Aneesh Chandrasekharan, Shankara Narayanan Varadarajan, Shijulal Nelson-Sathi, Roshny Prasad, Sara Jones, Sreekumar Easwaran, Pramod Darvin, Aswathy Sivasailam, Thankayyan Retnabai Santhoshkumar
The entry of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) into the host cell is mediated through the binding of the SARS-CoV-2 Spike protein via the receptor binding domain (RBD) to human angiotensin-converting enzyme 2 (hACE2). Identifying compounds that inhibit Spike-ACE2 binding would be a promising and safe antiviral approach against COVID-19. In this study, we used a BSL-2 compatible
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Full spectrum flow cytometry-powered comprehensive analysis of PBMC as biomarkers for immunotherapy in NSCLC with EGFR-TKI resistance Biol. Proced. Online (IF 6.4) Pub Date : 2023-07-24 Juan Zhou, Xiangling Chu, Jing Zhao, Mengqing Xie, Jing Wu, Xin Yu, Yujia Fang, Yazhou Li, Xiyan Li, Chunxia Su
Clinical studies suggest that immune checkpoint inhibitor (ICI) monotherapy has limited benefits in non-small cell lung cancer (NSCLC) patients after epidermal growth factor receptor-tyrosine kinase inhibitor (EGFR-TKI) failure. However, data about efficacy of ICI plus chemotherapy remain controversial, probably attributed to the heterogeneity among such population, and robust efficacy biomarkers are
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LINC00853 contributes to tumor stemness of gastric cancer through FOXP3-mediated transcription of PDZK1IP1 Biol. Proced. Online (IF 6.4) Pub Date : 2023-07-04 Xia Hu, Maoyuan Zhao, Shuangyuan Hu, Qingsong Liu, Wenhao Liao, Lina Wan, Feng Wei, Fangting Su, Yu Guo, Jinhao Zeng
The incidence and mortality of gastric cancer (GC) are high worldwide. Tumor stemness is a major contributor to tumorigenesis and development of GC, in which long non-coding RNAs (lncRNAs) are deeply involved. The purpose of this study was to investigate the influences and mechanisms of LINC00853 in the progression and stemness of GC. The level of LINC00853 was assessed based on The Cancer Genome Atlas
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Trastuzumab-resistant breast cancer cells-derived tumor xenograft models exhibit distinct sensitivity to lapatinib treatment in vivo Biol. Proced. Online (IF 6.4) Pub Date : 2023-06-27 Hao Liu, Sanbao Ruan, Margaret E. Larsen, Congcong Tan, Bolin Liu, Hui Lyu
Resistance to HER2-targeted therapies, including the monoclonal antibody trastuzumab and tyrosine kinase inhibitor lapatinib, frequently occurs and currently represents a significant clinical challenge in the management of HER2-positive breast cancer. We previously showed that the trastuzumab-resistant SKBR3-pool2 and BT474-HR20 sublines were refractory to lapatinib in vitro as compared to the parental
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Integrating Omics and CRISPR Technology for Identification and Verification of Genomic Safe Harbor Loci in the Chicken Genome Biol. Proced. Online (IF 6.4) Pub Date : 2023-06-24 Nima Dehdilani, Lena Goshayeshi, Sara Yousefi Taemeh, Ahmad Reza Bahrami, Sylvie Rival Gervier, Bertrand Pain, Hesam Dehghani
One of the most prominent questions in the field of transgenesis is ‘Where in the genome to integrate a transgene?’. Escape from epigenetic silencing and promoter shutdown of the transgene needs reliable genomic safe harbor (GSH) loci. Advances in genome engineering technologies combined with multi-omics bioinformatics data have enabled rational evaluation of GSH loci in the host genome. Currently
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Deinococcus radiodurans-derived membrane vesicles protect HaCaT cells against H2O2-induced oxidative stress via modulation of MAPK and Nrf2/ARE pathways Biol. Proced. Online (IF 6.4) Pub Date : 2023-06-16 Jeong Moo Han, Ha-Yeon Song, Jong-Hyun Jung, Sangyong Lim, Ho Seong Seo, Woo Sik Kim, Seung-Taik Lim, Eui-Baek Byun
Deinococcus radiodurans is a robust bacterium that can withstand harsh environments that cause oxidative stress to macromolecules due to its cellular structure and physiological functions. Cells release extracellular vesicles for intercellular communication and the transfer of biological information; their payload reflects the status of the source cells. Yet, the biological role and mechanism of Deinococcus
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A multi-omics analysis reveals CLSPN is associated with prognosis, immune microenvironment and drug resistance in cancers Biol. Proced. Online (IF 6.4) Pub Date : 2023-06-03 Yihong Chen, Haicheng Wen, Yin Li, Ying Han, Jun Tan, Cao Guo, Changjing Cai, Ping Liu, Yinghui Peng, Yihan Liu, Xinwen Wang, Shan Zeng, Ziyang Feng, Hong Shen
Immunotherapy is effective only in limited patients. It is urgent to discover a novel biomarker to predict immune cells infiltration status and immunotherapy response of different cancers. CLSPN has been reported to play a pivotal role in various biological processes. However, a comprehensive analysis of CLSPN in cancers has not been conducted. To show the whole picture of CLSPN in cancers, a pan-cancer
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Deep learning classification of uveal melanoma based on histopathological images and identification of a novel indicator for prognosis of patients Biol. Proced. Online (IF 6.4) Pub Date : 2023-06-02 Qi Wan, Xiang Ren, Ran Wei, Shali Yue, Lixiang Wang, Hongbo Yin, Jing Tang, Ming Zhang, Ke Ma, Ying-ping Deng
Deep learning has been extensively used in digital histopathology. The purpose of this study was to test deep learning (DL) algorithms for predicting the vital status of whole-slide image (WSI) of uveal melanoma (UM). We developed a deep learning model (Google-net) to predict the vital status of UM patients from histopathological images in TCGA-UVM cohort and validated it in an internal cohort. The
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Correction: Isolation and characterization of apical papilla cells from root end of human third molar and their differentiation into cementoblast cells: an in vitro study Biol. Proced. Online (IF 6.4) Pub Date : 2023-05-30 Morvarid Ebadi, Amirfarhang Miresmaeili, Sarah Rajabi, Shahrokh Shojaei, Sareh Farhadi
Correction: Biol Proced Online 25, 2 (2023) https://doi.org/10.1186/s12575-023-00190-6 In the version of this article originally published [1], there was an error in the author's order. The order of authors is now corrected in the author group and the original article has been corrected. Ebadi M, Miresmaeili A, Rajabi S, Shojaei S, Farhadi S. Isolation and characterization of apical papilla cells from
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TACE responser NDRG1 acts as a guardian against ferroptosis to drive tumorgenesis and metastasis in HCC Biol. Proced. Online (IF 6.4) Pub Date : 2023-05-19 Bufu Tang, Yajie Wang, Jinyu Zhu, Jingjing Song, Shiji Fang, Qiaoyou Weng, Yang Yang, Jianfei Tu, Zhongwei Zhao, Minjiang Chen, Min Xu, Weiqian Chen, Jiansong Ji
The treatment efficacy of transarterial chemoembolization (TACE) for hepatocellular carcinoma (HCC) varies widely between individuals. The aim of this study was to identify subtype landscapes and responser related to TACE, and further clarify the regulatory effect and corresponding mechanism of NDRG1 on HCC tumorgenesis and metastasis. The principal component analysis (PCA) algorithm was used to construct
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Correction: The role of three‑dimensional scaffolds based on polyglycerol sebacate/ polycaprolactone/ gelatin in the presence of Nanohydroxyapatite in promoting chondrogenic differentiation of human adipose‑derived mesenchymal stem cells Biol. Proced. Online (IF 6.4) Pub Date : 2023-05-17 Pardis Yousefi Talouki, Saeed Hesami Tackallou, Shahrokh Shojaei, Soheila Zamanlui Benisi, Vahabodin Goodarzi
Correction: Biol Proced Online 25:9, (2023) https://doi.org/10.1186/s12575-023-00197-z Following publication of the original article [1], the authors identified mistakes on affiliations 1, 2 and 3, Central Branch should be corrected to Central Tehran Branch. The corrected affiliations are shown in this article and the original article has been corrected. Talouki PY, Tackallou SH, Shojaei S, et al.
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BPTF in bone marrow provides a potential progression biomarker regulated by TFAP4 through the PI3K/AKT pathway in neuroblastoma Biol. Proced. Online (IF 6.4) Pub Date : 2023-05-11 Chiyi Jiang, Yeran Yang, Sidou He, Zhixia Yue, Tianyu Xing, Ping Chu, Wenfa Yang, Hui Chen, Xiaoxi Zhao, Yongbo Yu, Xuan Zhang, Yan Su, Yongli Guo, Xiaoli Ma
Neuroblastoma (NB) is the most common extracranial malignant solid tumor in children, which is highly prone to bone marrow (BM) metastasis. BM can monitor early signs of mild disease and metastasis. Existing biomarkers are insufficient for the diagnosis and treatment of NB. Bromodomain PHD finger transcription factor (BPTF) is an important subunit of the chromatin-remodeling complex that is closely
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Exosomal microRNA-342-5p secreted from adipose-derived mesenchymal stem cells mitigates acute kidney injury in sepsis mice by inhibiting TLR9 Biol. Proced. Online (IF 6.4) Pub Date : 2023-04-21 Wei Liu, Chenghuan Hu, Buyao Zhang, Mingxia Li, Fuxing Deng, Shuangping Zhao
Sepsis-related acute kidney injury (AKI) is an inflammatory disease associated with extremely high mortality and health burden. This study explored the possibility of exosomes secreted by adipose-derived mesenchymal stem cells (AMSCs) serving as a carrier for microRNA (miR)-342-5p to alleviate sepsis-related AKI and investigated the possible mechanism. Serum was obtained from 30 patients with sepsis-associated
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The role of three-dimensional scaffolds based on polyglycerol sebacate/ polycaprolactone/ gelatin in the presence of Nanohydroxyapatite in promoting chondrogenic differentiation of human adipose-derived mesenchymal stem cells Biol. Proced. Online (IF 6.4) Pub Date : 2023-03-24 Pardis Yousefi Talouki, Saeed Hesami Tackallou, Shahrokh Shojaei, Soheila Zamanlui Benisi, Vahabodin Goodarzi
Tissue engineering for cartilage regeneration has made great advances in recent years, although there are still challenges to overcome. This study aimed to evaluate the chondrogenic differentiation of human adipose-derived mesenchymal stem cells (hADSCs) on three-dimensional scaffolds based on polyglycerol sebacate (PGS) / polycaprolactone (PCL) / gelatin(Gel) in the presence of Nanohydroxyapatite
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Macrophage-Derived MMP-9 and MMP-2 are Closely Related to the Rupture of the Fibrous Capsule of Hepatocellular Carcinoma Leading to Tumor Invasion Biol. Proced. Online (IF 6.4) Pub Date : 2023-03-14 Quanwei Cui, Xuben Wang, Yongwei Zhang, Yiqing Shen, Yeben Qian
Hepatocellular carcinoma (HCC) is an aggressive tumor with a poor clinical prognosis. Rupture of the fibrous capsule (FC) is a very important clinical phenomenon in the invasion and metastasis of HCC. FC is mainly composed of type I collagen (COL1A1). However, it is not clear what caused the FC rupture. In this study, we aimed to determine whether the rupture of FC in HCC patients was related to macrophage-derived
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Blocking Abundant RNA Transcripts by High-Affinity Oligonucleotides during Transcriptome Library Preparation Biol. Proced. Online (IF 6.4) Pub Date : 2023-03-08 Celine Everaert, Jasper Verwilt, Kimberly Verniers, Niels Vandamme, Alvaro Marcos Rubio, Jo Vandesompele, Pieter Mestdagh
RNA sequencing has become the gold standard for transcriptome analysis but has an inherent limitation of challenging quantification of low-abundant transcripts. In contrast to microarray technology, RNA sequencing reads are proportionally divided in function of transcript abundance. Therefore, low-abundant RNAs compete against highly abundant - and sometimes non-informative - RNA species. We developed
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YTHDF2 exerts tumor-suppressor roles in gastric cancer via up-regulating PPP2CA independently of m6A modification Biol. Proced. Online (IF 6.4) Pub Date : 2023-03-04 Ying Zhou, Kailing Fan, Ning Dou, Li Li, Jialin Wang, Jingde Chen, Yandong Li, Yong Gao
YTHDF2 is one of important readers of N6-methyladenosine (m6A) modification on RNA. Growing evidence implicates that YTHDF2 takes an indispensable part in the regulation of tumorigenesis and metastasis in different cancers, but its biological functions and underlying mechanisms remain elusive in gastric cancer (GC). To investigate the clinical relevance and biological function of YTHDF2 in GC. Compared
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Influence of Exosomes on Astrocytes in the Pre-Metastatic Niche of Lung Cancer Brain Metastases Biol. Proced. Online (IF 6.4) Pub Date : 2023-03-01 Lingyun Ye, Yinfei Wu, Juan Zhou, Mengqing Xie, Zhemin Zhang, Chunxia Su
Lung cancer is the most common cause of cancer-related death globally. There are several reasons for this high mortality rate, including metastasis to multiple organs, especially the brain. Exosomes play a pivotal role in tumor metastasis by remodeling the microenvironment of remote target organs and promoting the pre-metastatic niche’s formation. Since astrocytes are indispensable for maintaining
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A 3D human co-culture to model neuron-astrocyte interactions in tauopathies Biol. Proced. Online (IF 6.4) Pub Date : 2023-02-23 Kevin L. Batenburg, Claudia Sestito, Paulien Cornelissen-Steijger, Jan R. T. van Weering, Leo S. Price, Vivi M. Heine, Wiep Scheper
Intraneuronal tau aggregation is the major pathological hallmark of neurodegenerative tauopathies. It is now generally acknowledged that tau aggregation also affects astrocytes in a cell non-autonomous manner. However, mechanisms involved are unclear, partly because of the lack of models that reflect the situation in the human tauopathy brain. To accurately model neuron-astrocyte interaction in tauopathies
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Ultrasound and microbubble-mediated delivery of miR-424-5p has a therapeutic effect in preeclampsia Biol. Proced. Online (IF 6.4) Pub Date : 2023-02-15 Xudong Wang, Yan Wu, Qinliang Sun, Zhonghui Jiang, Guoying Che, Yangyang Tao, Jiawei Tian
To determine the influence of ultrasound/microbubble-mediated miR-424-5p delivery on trophoblast cells and the underlying mechanism. Blood pressure and 24-h proteinuria of patients with preeclampsia (PE) were measured as well as the levels of miR-424-5p and amine oxidase copper containing 1 (AOC1) in placental tissues. HTR-8/Svneo and TEV-1 cells were subjected to cell transfection or ultrasonic microbubble
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Isolation and characterization of apical papilla cells from root end of human third molar and their differentiation into cementoblast cells: an in vitro study Biol. Proced. Online (IF 6.4) Pub Date : 2023-01-23 Morvarid Ebadi, Amirfarhang Miresmaeili, Shahrokh Shojaei, Sareh Farhadi, Sarah Rajabi
Periodontal regeneration, treatment of periodontal-related diseases and improving the function of implants are global therapeutic challenges. The differentiation of human stem cells from apical papilla into cementoblasts may provide a strategy for periodontitis treatment. This study aimed to evaluate the differentiation of primary human stem cells apical papilla (hSCAPs) to cementoblast cells. SCAPs
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Protocol for Evaluating In Vivo the Activation of the P2RX7 Immunomodulator Biol. Proced. Online (IF 6.4) Pub Date : 2023-01-04 Janho dit Hreich, Serena, Juhel, Thierry, Hofman, Paul, Vouret-Craviari, Valérie
P2RX7 is a purinergic receptor with pleiotropic activities that is activated by high levels of extracellular ATP that are found in inflamed tissues. P2RX7 has immunomodulatory and anti-tumor proprieties and is therefore a therapeutic target for various diseases. Several compounds are developed to either inhibit or enhance its activation. However, studying their effect on P2RX7’s activities is limited
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The Critical Biomarkers Identification of Insulin Signaling Involved in Initiating cAMP Signaling Mediated Salivary Secretion in Sjogren Syndrome: Transcriptome Sequencing in NOD Mice Model Biol. Proced. Online (IF 6.4) Pub Date : 2022-12-27 Chen, Bo, Zhou, Jiannan, Mao, Tianjiao, Cao, Tingting, Hu, Shilin, Zhang, Wenqi, Li, Xueyang, Qin, Xiuni, Liu, Xintong, Watanabe, Nobumoto, Li, Jiang
Sjogren’s syndrome (SS) is an autoimmune disorder characterized by the destruction of exocrine glands, resulting in dry mouth and eyes. Currently, there is no effective treatment for SS, and the mechanisms associated with inadequate salivary secretion are poorly understood. In this study, we used NOD mice model to monitor changes in mice’s salivary secretion and water consumption. Tissue morphology
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Clinical Prognostic Factors and Integrated Multi-Omics Studies Identify Potential Novel Therapeutic Targets for Pediatric Desmoid Tumor Biol. Proced. Online (IF 6.4) Pub Date : 2022-12-20 Ning, Bo, Huang, Peng, Zhu, Lining, Ma, Zhijie, Chen, Xiaoli, Xu, Haojun, Ma, Ruixue, Yao, Chengyun, Zheng, Pengfei, Xia, Tian, Xia, Hongping
Desmoid tumor (DT), also known as desmoid-type fibromatosis (DTF) or aggressive fibromatosis (AF) is a rare mesenchymal tumor affecting both children and adults. It is non-metastasis but infiltrative, growing with a high recurrence rate to even cause serious health problems. This study investigates the biology of desmoid tumors through integrated multi-omics studies. We systematically investigated
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Comprehensive Analysis of Cellular Senescence-Related Genes in Prognosis, Molecular Characterization and Immunotherapy of Hepatocellular Carcinoma Biol. Proced. Online (IF 6.4) Pub Date : 2022-12-19 Sun, Liang, Liu, Zitao, Ning, Ke, Wu, Zhipeng, Chen, Zhendong, Wu, Zhengyi, Yin, Xiangbao
Cellular senescence is a tumor suppressive response in which the cell cycle is in a state of permanent arrest and can inhibit tumor cell proliferation. In recent years, induction of cellular senescence has been shown to be important for antitumor therapy, and the link between cellular senescence and clinical prognosis and immunotherapy of hepatocellular carcinoma is still unknown. We performed enrichment
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Decoding the Virtual 2D Map of the Chloroplast Proteomes Biol. Proced. Online (IF 6.4) Pub Date : 2022-12-13 Mohanta, Tapan Kumar, Mohanta, Yugal Kishore, Al-Harrasi, Ahmed
The chloroplast is a semi-autonomous organelle having its own genome and corresponding proteome. Although chloroplast genomes have been reported, no reports exist on their corresponding proteomes. Therefore, a proteome-wide analysis of the chloroplast proteomes of 2893 species was conducted, and a virtual 2D map was constructed. The resulting virtual 2D map of the chloroplast proteome exhibited a bimodal
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Genetic Analysis of Platelet-Related Genes in Hepatocellular Carcinoma Reveals a Novel Prognostic Signature and Determines PRKCD as the Potential Molecular Bridge Biol. Proced. Online (IF 6.4) Pub Date : 2022-12-03 Li, Xiangyu, Zhao, Kai, Lu, Yun, Wang, Jianming, Yao, Wei
Hepatocellular carcinoma (HCC) belongs to a representative lethality gastrointestinal malignancy, and comprehensive management of HCC remains intractable at present on account of its invasive biological feature that is easy to relapse and early metastasis. The intimate connection between platelets and tumor progression has been widely reported, and platelet-related indicators are also used in the clinical
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Circadian gene CSNK1D promoted the progression of hepatocellular carcinoma by activating Wnt/β-catenin pathway via stabilizing Dishevelled Segment Polarity Protein 3 Biol. Proced. Online (IF 6.4) Pub Date : 2022-12-02 Zhu, Mengqi, Zhang, Jianping, Bian, Saiyan, Zhang, Xue, Shen, Yiping, Ni, Zhiyu, Xu, Shiyu, Cheng, Chun, Zheng, Wenjie
A variety of studies have connected circadian rhythm to the initiation and progression of hepatocellular carcinoma (HCC). The purpose of this study was to figure out about the circadian genes' profile characteristics, prognostic significance, and targeted values in HCC. The expression profiles and prognostic significance of circadian genes in the cancer genome atlas liver hepatocellular carcinoma (TCGA-LIHC)
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The untargeted urine volatilome for biomedical applications: methodology and volatilome database Biol. Proced. Online (IF 6.4) Pub Date : 2022-12-01 Llambrich, Maria, Brezmes, Jesús, Cumeras, Raquel
Chemically diverse in compounds, urine can give us an insight into metabolic breakdown products from foods, drinks, drugs, environmental contaminants, endogenous waste metabolites, and bacterial by-products. Hundreds of them are volatile compounds; however, their composition has never been provided in detail, nor has the methodology used for urine volatilome untargeted analysis. Here, we summarize
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Combating the menace of antimicrobial resistance in Africa: a review on stewardship, surveillance and diagnostic strategies Biol. Proced. Online (IF 6.4) Pub Date : 2022-11-23 Gulumbe, Bashar Haruna, Haruna, Usman Abubakar, Almazan, Joseph, Ibrahim, Ibrahim Haruna, Faggo, Abdullahi Adamu, Bazata, Abbas Yusuf
The emergence of antibiotic-resistant pathogens has threatened not only our ability to deal with common infectious diseases but also the management of life-threatening complications. Antimicrobial resistance (AMR) remains a significant threat in both industrialized and developing countries alike. In Africa, though, poor clinical care, indiscriminate antibiotic use, lack of robust AMR surveillance programs
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Analysis and Interpretation of metagenomics data: an approach Biol. Proced. Online (IF 6.4) Pub Date : 2022-11-19 Navgire, Gauri S., Goel, Neha, Sawhney, Gifty, Sharma, Mohit, Kaushik, Prashant, Mohanta, Yugal Kishore, Mohanta, Tapan Kumar, Al-Harrasi, Ahmed
Advances in next-generation sequencing technologies have accelerated the momentum of metagenomic studies, which is increasing yearly. The metagenomics field is one of the versatile applications in microbiology, where any interaction in the environment involving microorganisms can be the topic of study. Due to this versatility, the number of applications of this omics technology reached its horizons
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Improved cytometric analysis of untouched lung leukocytes by enzymatic liquefaction of sputum samples Biol. Proced. Online (IF 6.4) Pub Date : 2022-11-17 Santopolo, Giulia, Clemente, Antonio, Rojo-Molinero, Estrella, Fernández, Sara, Álvarez, María Concepción, Oliver, Antonio, de la Rica, Roberto
Phenotyping sputum-resident leukocytes and evaluating their functional status are essential analyses for exploring the cellular basis of pathological processes in the lungs, and flow cytometry is widely recognized as the gold-standard technique to address them. However, sputum-resident leukocytes are found in respiratory samples which need to be liquefied prior to cytometric analysis. Traditional liquefying
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Shrimp miR-965 transfers tumoricidal mitochondria Biol. Proced. Online (IF 6.4) Pub Date : 2022-10-26 Kim, Hyueyun, Choi, Ji Ha, Moon, Chang Mo, Kang, Jihee Lee, Woo, Minna, Kim, Minsuk
Micro RNA of Marsupenaeus japonicas has been known to promote apoptosis of tumor cells. However, the detailed mechanisms are not well understood. Using tomographic microscope, which can detect the internal structure of cells, we observed breast tumor cells following treatment of the miRNA. Intriguingly, we found that mitochondria migrate to an adjacent tumor cells through a tunneling nanotube. To recapitulate
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Angiotensin-converting enzyme 2 identifies immuno-hot tumors suggesting angiotensin-(1–7) as a sensitizer for chemotherapy and immunotherapy in breast cancer Biol. Proced. Online (IF 6.4) Pub Date : 2022-10-25 Mei, Jie, Cai, Yun, Xu, Rui, Yu, Xinqian, Han, Xu, Weng, Miaomiao, Chen, Lingyan, Ma, Tao, Gao, Tianshu, Gao, Fei, Xia, Tiansong, Zhu, Yichao, Zhang, Yan
Angiotensin-converting enzyme 2 (ACE2) is known as a tumor suppressor and lowly expressed in most cancers. The expression pattern and role of ACE2 in breast cancer (BC) have not been deeply elucidated. A systematic pan-cancer analysis was conducted to assess the expression pattern and immunological role of ACE2 based on RNA-sequencing (RNA-seq) data downloaded from The Cancer Genome Atlas (TCGA). The
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Circ_0003570 Suppresses the progression of hepatocellular carcinoma through miR-182-5p/STARD13 regulatory axis Biol. Proced. Online (IF 6.4) Pub Date : 2022-10-14 Zhang, Xu, Chen, Wenwen, Guo, Dan, Li, Yarui, Zhao, Yan, Ren, Mudan, Lu, Guifang, Lu, Xinlan, He, Shuixiang
Emerging evidence have revealed that circRNAs exert important biological effects in the development and progression of various diseases, including cancer. Our study aimed to elaborated the biological effects of hsa-circ_0003570 in hepatocellular carcinoma (HCC) development at the molecular level. The results of functional experiments showed that knockdown of circ_0003570 induced HCC cell growth, migration
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Single-cell and WGCNA uncover a prognostic model and potential oncogenes in colorectal cancer Biol. Proced. Online (IF 6.4) Pub Date : 2022-09-19 Di, Ziyang, Zhou, Sicheng, Xu, Gaoran, Ren, Lian, Li, Chengxin, Ding, Zheyu, Huang, Kaixin, Liang, Leilei, Yuan, Yihang
Colorectal cancer (CRC) is one of the leading causes of cancer-related death worldwide. Single-cell transcriptome sequencing (scRNA-seq) can provide accurate gene expression data for individual cells. In this study, a new prognostic model was constructed by scRNA-seq and bulk transcriptome sequencing (bulk RNA-seq) data of CRC samples to develop a new understanding of CRC. CRC scRNA-seq data were downloaded
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KDELR2-KIF20A axis facilitates bladder cancer growth and metastasis by enhancing Golgi-mediated secretion Biol. Proced. Online (IF 6.4) Pub Date : 2022-09-12 Meng, Xiangui, Li, Weiquan, Yuan, Hongwei, Dong, Wei, Xiao, Wen, Zhang, Xiaoping
Bladder cancer (BCa) is a fatal form of cancer worldwide associated with a poor prognosis. Identifying novel drivers of growth and metastasis hold therapeutic potential for the disease. Transport homeostasis between the endoplasmic reticulum and Golgi and the secretion of matrix metalloproteinases (MMPs) mediated by Golgi have been reported to be closely associated with tumor progression. However,
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Eicosapentaenoic acid loaded silica nanoemulsion attenuates hepatic inflammation through the enhancement of cell membrane components Biol. Proced. Online (IF 6.4) Pub Date : 2022-09-07 Hussein, Jihan, El-Bana, Mona A., El-kHayat, Zakaria, El-Naggar, Mehrez E., Farrag, Abdel Razik, Medhat, Dalia
Liver inflammation is a multistep process that is linked with cell membrane fatty acids composition. The effectiveness of eicosapentaenoic acid (EPA) undergoes an irreversible change during processing due to their unsaturated nature; so the formation of nanocarrier for EPA is crucial for improving EPA’s bioavailability and pharmacological properties. In this study we aimed to evaluate the efficiency
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OTUB2 Regulates YAP1/TAZ to Promotes the Progression of Esophageal Squamous Cell Carcinoma Biol. Proced. Online (IF 6.4) Pub Date : 2022-07-18 Liu, Li, Cheng, Hu, Ji, Min, Su, Liping, Lu, Ziyang, Hu, Xiayun, Guan, Yaling, Xiao, Jinling, Ma, Lijuan, Zhang, Wei, Pu, Hongwei
The effects of Otubain-2 (OTUB2) on the proliferation, invasion, and migration of esophageal squamous cell carcinoma (ESCC) were investigated by interfering with OTUB2 expression. Bioinformatics analysis was used to analyze OTUB2 expression in esophageal carcinoma and interactions between OTUB2 and YAP1/TAZ. Paraffin-embedded ESCC tissues (n = 183) were selected for immunohistochemical staining to
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A comprehensive prognostic and immune analysis of enhancer RNA identifies IGFBP7-AS1 as a novel prognostic biomarker in Uterine Corpus Endometrial Carcinoma Biol. Proced. Online (IF 6.4) Pub Date : 2022-07-15 Liu, Jinhui, Yin, Jian, Wang, Yuanyuan, Cai, Lixin, Geng, Rui, Du, Mulong, Zhong, Zihang, Ni, Senmiao, Huang, Xiaohao, Yu, Hao, Bai, Jianling
Long non-coding RNAs (lncRNA) have been implicated in a hand of studies that supported an involvement and co-operation in Uterine Corpus Endometrial Carcinoma (UCEC). Enhancer RNAs (eRNA), a functional subtype of lncRNA, have a key role throughout the genome to guide protein production, thus potentially associated with diseases. In this study, we mainly applied the Cancer Genome Atlas (TCGA) dataset
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CRISPR/Cas9-mediated LINC00511 knockout strategies, increased apoptosis of breast cancer cells via suppressing antiapoptotic genes Biol. Proced. Online (IF 6.4) Pub Date : 2022-07-05 Azadbakht, Narjes, Doosti, Abbas, Jami, Mohammad-Saeid
The growing detection of long noncoding RNAs (lncRNAs) required the application of functional approaches in order to provide absolutely precise, conducive, and reliable processed information along with effective consequences. We utilized genetic knockout (KO) techniques to ablate the Long Intergenic Noncoding RNA 00,511 gene in several humans who suffered from breast cancer cells and at the end we
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A novel 7 RNA-based signature for prediction of prognosis and therapeutic responses of wild-type BRAF cutaneous melanoma Biol. Proced. Online (IF 6.4) Pub Date : 2022-06-24 Sun, Ruizheng, Liu, Yaozhong, Lei, Cheng, Tang, Zhenwei, Lu, Lixia
The prognosis of wild-type BRAF cutaneous melanoma (WT Bf-CM) patients remains poor due to the lack of therapeutic options. However, few studies have investigated the factors contributing to the prognosis of WT Bf-CM patients. In this paper, we proposed and validated a novel 7-RNA based signature to predict the prognosis of WT Bf-CM by analyzing the information from TCGA database. Dependence of this
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Establishment and Fractionation of Metastatic Axillary Lymph Node Cell Suspension for Determination of Protein Expression Levels of Nuclear cFOS and Cytosolic TGFβ1 from Breast Cancer Patients Biol. Proced. Online (IF 6.4) Pub Date : 2022-06-04 Ivanović, Vesna, Dedović-Tanić, Nasta, Milovanović, Zorka, Stojiljković, Bratislav, Demajo, Miroslav, Mandušić, Vesna
Metastatic Axillary Lymph Node (mALN) status is currently the most important prognostic factor in the management of primary breast cancer (BC). Thus, development of specimens which enable identification of new mALN markers, involved in the progression of the disease, are of considerable interest. The specific aim of this work was to describe the method of establishment of Metastatic Axillary Nodal